Mercurial > repos > galaxyp > maxquant

comparison test-data/10/config.yml @ 15:97a7f34fcb6a draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 641b1d3af3b589a861cde2dc2f8803c9b79df7be"
author galaxyp
date Wed, 11 Aug 2021 09:24:23 +0000
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14:e42225f8a659 15:97a7f34fcb6a
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2 fastaFiles: [/tmp/tmps9fy8_y6/files/0/d/3/dataset_0d32c02a-47ca-47c8-83b6-1e955f377a96.dat]
3 parseRules:
4 identifierParseRule: '^>.*\|(.*)\|.*$'
5 descriptionParseRule: '^>.*\|.*\|[^ ]+ (.*) OS.*$'
6 minUniquePeptides: 1
7 minPepLen: 7
8 maxPeptideMass: 4600
9 calcPeakProperties: False
10 writeMzTab: False
11 separateLfq: False
12 lfqStabilizeLargeRatios: True
13 lfqRequireMsms: True
14 advancedSiteIntensities: True
15 matchBetweenRuns: False
16 includeContaminants: True
17 minPeptideLengthForUnspecificSearch: 8
18 maxPeptideLengthForUnspecificSearch: 25
19 decoyMode: revert
20 peptideFdr: 0.01
21 proteinFdr: 0.01
22 quantMode: 1
23 restrictProteinQuantification: True
24 restrictMods: [Oxidation (M),Acetyl (Protein N-term)]
25 useCounterparts: True
26 paramGroups:
27 - files: ['thermo.raw.thermo.raw']
28 maxMissedCleavages: 1
29 fixedModifications: [Carbamidomethyl (C)]
30 variableModifications: [Oxidation (M)]
31 enzymes: [Trypsin/P]
32 enzymeMode: 0
33 lfqMode: 1
34 lfqNormType: 1
35 lfqMinEdgesPerNode: 3
36 lfqAvEdgesPerNode: 6
37 lfqMinRatioCount: 2
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